Variant report

Variant	rs13162056
Chromosome Location	chr5:75334314-75334315
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs13174796	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1393205	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1423103	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1423104	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1501905	0.80[MEX][hapmap];0.82[TSI][hapmap]
rs1553310	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs183767	0.83[CEU][hapmap];0.82[JPT][hapmap]
rs187285	0.82[CEU][hapmap]
rs1910051	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2254153	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2547455	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2547456	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs258612	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs258613	0.91[EUR][1000 genomes]
rs258614	0.92[EUR][1000 genomes]
rs2731732	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2731733	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2731735	0.91[EUR][1000 genomes]
rs28620	0.84[CEU][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28621	0.80[CEU][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];0.92[MEX][hapmap];0.98[TSI][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2937705	0.98[TSI][hapmap]
rs30191	0.96[CEU][hapmap];0.97[GIH][hapmap];0.90[JPT][hapmap];0.92[MEX][hapmap];0.98[TSI][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs30192	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs30196	0.92[CEU][hapmap];0.83[GIH][hapmap];0.88[MEX][hapmap];0.95[TSI][hapmap];0.94[EUR][1000 genomes]
rs30197	0.93[EUR][1000 genomes]
rs30198	0.80[CEU][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap];0.82[EUR][1000 genomes]
rs30199	0.89[EUR][1000 genomes]
rs30202	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs30204	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs30205	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs30206	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs30249	0.91[EUR][1000 genomes]
rs7378518	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7443455	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7443586	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs993914	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027368	chr5:74759999-75663712	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv518475	chr5:74863041-75411804	Strong transcription Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13162056	CTC-235G5.3	cis	Nerve Tibial	GTEx

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:75333000-75334400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
2	chr5:75333400-75334400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
3	chr5:75333400-75334400	Active TSS	iPS-20b Cell Line	embryonic stem cell
4	chr5:75333600-75334400	Enhancers	HMEC	breast
5	chr5:75334000-75334400	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
6	chr5:75334000-75334400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr5:75334000-75334400	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
8	chr5:75334200-75334400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
9	chr5:75334200-75334400	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr5:75334200-75334400	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
11	chr5:75334200-75334400	Bivalent Enhancer	Breast Myoepithelial Primary Cells	Breast
12	chr5:75334200-75334400	Bivalent Enhancer	Fetal Brain Female	brain

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